/*
 *  Copyright 2010 Susanta Tewari.
 *  This file is part of genomemap.
 * 
 *  genomemap is free software: you can redistribute it and/or modify
 *  it under the terms of the GNU General Public License as published by
 *  the Free Software Foundation, either version 3 of the License, or
 *  (at your option) any later version.
 *  
 *  genomemap is distributed in the hope that it will be useful,
 *  but WITHOUT ANY WARRANTY; without even the implied warranty of
 *  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 *  GNU General Public License for more details.
 *  
 *  You should have received a copy of the GNU General Public License
 *  along with genomemap.  If not, see <http://www.gnu.org/licenses/>.
 */
package genomemap.map;

import java.util.HashSet;
import java.util.Set;

/**
 * @version 1.0 Apr 9, 2010
 * @author Susanta Tewari
 */
public class ContigMapStatistics {

    Set<ContigMap> contigMaps = new HashSet<ContigMap>();

    /**
     * @return average contig size in KB
     */
    public Double aveContigSize() {

        double totalContigSize = 0;
        int totalContigCount = 0;

        for (ContigMap contigMap : contigMaps) {

            totalContigCount += contigMap.getContigCount();
            totalContigSize += contigMap.estimateChromosomeSize();

        }

        return totalContigSize / totalContigCount;
    }

    /**
     * @return average number of clones per contig
     */
    public Double aveClonesPerContig() {

        int cloneCount = 0;
        int totalContigCount = 0;

        for (ContigMap contigMap : contigMaps) {

            totalContigCount += contigMap.getContigCount();
            cloneCount += contigMap.getClones().size();

        }

        return (double) cloneCount / totalContigCount;
    }

}
